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what?
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| Spatial Organization of Genomes |
In order to determine the spatial organization of chromosomes at high resolution we have developed the Chromosome Conformation Capture technology, commonly referred to as 3C (Dekker et al. (2002), Science, 295: 1306-1311). 3C is used to detect physical interactions between pairs of genomic loci. 3C is now widely used and has proven to be a very powerful tool to detect cis- and trans-interactions between genes and regulatory elements.
In order to dramatically increase the throughput of the analysis of chromatin interactions we have developed the 3C-Carbon Copy (5C) technology that can be used to analyze millions of chromatin interactions in parallel (Dostie et al. (2006), Genome Research, 16(10): 1299-1309). 5C was the first method that combines 3C with microarray detection. 5C is highly versatile and can also be used in conjunction with ultra-high-throughput single molecule DNA sequencing.
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We are currently using 3C and 5C to map and study the networks of chromatin interactions that underlie long-range gene regulation in the human genome.
To facilitate 5C experiment workflow, a full suite of web-based tools were developed for the design, analysis and data visualization of this new datatype. These tools allow users to design a 5C experiment for any given locus / species and ease them through the primer layout and filtering processes. Once designed a full spectrum of analysis, integration and visualizations tools become available. We call these tools my5C.
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